Currently, the mapper does not include transcript information in post-mapped metadata for accession-based score sets, so these score sets are skipped by the post-mapping UniProt job.
For accession-based score sets where the reference accession is a transcript, we should include cdna information (the transcript accession) in the post-mapped metadata.
Note that the transcript information is usually taken from the selected transcript. In this case, we don't select a transcript, since it was already provided, so we will need to take the transcript accession id from the provided score set metadata.
For accession-based score sets where the reference accession is a chromosome, we need to think about how to handle this. We will not have selected a transcript or been provided one. I believe we already do some work to get the HGNC gene id for this case, so maybe we could also get transcript information through that process.
Currently, the mapper does not include transcript information in post-mapped metadata for accession-based score sets, so these score sets are skipped by the post-mapping UniProt job.
For accession-based score sets where the reference accession is a transcript, we should include cdna information (the transcript accession) in the post-mapped metadata.
Note that the transcript information is usually taken from the selected transcript. In this case, we don't select a transcript, since it was already provided, so we will need to take the transcript accession id from the provided score set metadata.
For accession-based score sets where the reference accession is a chromosome, we need to think about how to handle this. We will not have selected a transcript or been provided one. I believe we already do some work to get the HGNC gene id for this case, so maybe we could also get transcript information through that process.